Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Cyclic - C3  (3D View)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 130.51 kDa 
• Atom Count: 9171 
• Modelled Residue Count: 1233 
• Deposited Residue Count: 1233 
• Unique protein chains: 1

6CTF

Crystal structure of GltPh fast mutant - R276S/M395R

• DOI: 10.2210/pdb6CTF/pdb

• Classification: MEMBRANE PROTEIN
• Organism(s): Pyrococcus horikoshii OT3
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2018-03-23 Released: 2018-10-10 
• Deposition Author(s): Boudker, O., Oh, S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 4.05 Å
• R-Value Free: 0.266 
• R-Value Work: 0.222 
• R-Value Observed: 0.224 

Literature

Kinetic mechanism of coupled binding in sodium-aspartate symporter GltPh.

Oh, S., Boudker, O.

(2018) Elife 7

• PubMed: 30255846 
• DOI: 10.7554/eLife.37291
• Primary Citation of Related Structures:  
  6CTF


• PubMed Abstract: 
  

Many secondary active membrane transporters pump substrates against concentration gradients by coupling their uptake to symport of sodium ions. Symport requires the substrate and ions to be always transported together. Cooperative binding of the solutes is a key mechanism contributing to coupled transport in the sodium and aspartate symporter from Pyrococcus horikoshii Glt _Ph . Here, we describe the kinetic mechanism of coupled binding for Glt _Ph in the inward facing state. The first of the three coupled sodium ions, binds weakly and slowly, enabling the protein to accept the rest of the ions and the substrate. The last ion binds tightly, but is in rapid equilibrium with solution. Its release is required for the complex disassembly. Thus, the first ion serves to 'open the door' for the substrate, the last ion 'locks the door' once the substrate is in, and one ion contributes to both events.

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Organizational Affiliation: 

Howard Hughes Medical Institute, Chevy Chase, United States.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glutamate transporter homolog	A, B, C	411	Pyrococcus horikoshii OT3	Mutation(s): 2  Gene Names: PH1295
Find proteins for O59010 (Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)) Explore O59010  Go to UniProtKB:  O59010

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ASP	A, B, C	ASPARTIC ACID C4 H7 N O4 CKLJMWTZIZZHCS-REOHCLBHSA-N
NA	A, B, C	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 4.05 Å
• R-Value Free: 0.266 
• R-Value Work: 0.222 
• R-Value Observed: 0.224 
• Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 116.475	α = 90
b = 196.42	β = 90
c = 194.328	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2018-03-23 
• Released Date: 2018-10-10 
Deposition Author(s): Boudker, O., Oh, S.

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Funding Organization	Location	Grant Number
	United States	--

Revision History  

• Version 1.0: 2018-10-10
  Type: Initial release
  
• Version 1.1: 2018-10-31
  Changes: Data collection, Database references, Structure summary